Genome portal kit 🎁

ScilifelabDataCentre · Nov 21, 2024 · aeb558c · aeb558c
1 parent 85c710b
commit aeb558c
Show file tree

Hide file tree

Showing 25 changed files with 14 additions and 6 deletions.
diff --git a/hugo/config/_default/hugo.yaml → hugo/config.yaml b/hugo/config/_default/hugo.yaml → hugo/config.yaml
@@ -12,11 +12,9 @@ markup:
     endLevel: 4
     ordered: false
 
-permalinks:
-  section:
-    species: /:sections[1:]
-  page:
-    species: /:sections[1:]/:slug
+module:
+  imports:
+    - path: genome-portal-kit
 
 menus:
   main:

diff --git a/hugo/config/production/hugo.yaml b/hugo/config/production/hugo.yaml
diff --git a/hugo/themes/genome-portal-kit/README.md b/hugo/themes/genome-portal-kit/README.md
@@ -0,0 +1,8 @@
+# Genome portal
+A Hugo theme for a genome portal embedding the JBrowse2 genome browser.
+
+## Features
+
+## Installation
+
+## Configuration
diff --git a/hugo/archetypes/species/_index.md → ...e-portal-kit/archetypes/species/_index.md b/hugo/archetypes/species/_index.md → ...e-portal-kit/archetypes/species/_index.md
diff --git a/...archetypes/species/assembly/assembly.yaml → ...archetypes/species/assembly/assembly.yaml b/...archetypes/species/assembly/assembly.yaml → ...archetypes/species/assembly/assembly.yaml
diff --git a/hugo/archetypes/species/assembly/contrib.md → ...it/archetypes/species/assembly/contrib.md b/hugo/archetypes/species/assembly/contrib.md → ...it/archetypes/species/assembly/contrib.md
diff --git a/hugo/archetypes/species/assembly/index.md → ...-kit/archetypes/species/assembly/index.md b/hugo/archetypes/species/assembly/index.md → ...-kit/archetypes/species/assembly/index.md
diff --git a/...hetypes/species/download/data_tracks.json → ...hetypes/species/download/data_tracks.json b/...hetypes/species/download/data_tracks.json → ...hetypes/species/download/data_tracks.json
diff --git a/hugo/archetypes/species/download/index.md → ...-kit/archetypes/species/download/index.md b/hugo/archetypes/species/download/index.md → ...-kit/archetypes/species/download/index.md
diff --git a/hugo/archetypes/species/lineage.default.yaml → ...t/archetypes/species/lineage.default.yaml b/hugo/archetypes/species/lineage.default.yaml → ...t/archetypes/species/lineage.default.yaml
diff --git a/hugo/archetypes/species/placeholder.png → ...al-kit/archetypes/species/placeholder.png b/hugo/archetypes/species/placeholder.png → ...al-kit/archetypes/species/placeholder.png
diff --git a/hugo/themes/genome-portal-kit/config/_default/hugo.yaml b/hugo/themes/genome-portal-kit/config/_default/hugo.yaml
@@ -0,0 +1,3 @@
+permalinks:
+  page:
+    species_bundle: /:sections[1:]/:slug
diff --git a/hugo/config/_default/params.yaml → ...me-portal-kit/config/_default/params.yaml b/hugo/config/_default/params.yaml → ...me-portal-kit/config/_default/params.yaml
diff --git a/...s/partials/species_bundle/GetGbifKey.html → ...s/partials/species_bundle/GetGbifKey.html b/...s/partials/species_bundle/GetGbifKey.html → ...s/partials/species_bundle/GetGbifKey.html
diff --git a/...uts/partials/species_bundle/GetTaxId.html → ...uts/partials/species_bundle/GetTaxId.html b/...uts/partials/species_bundle/GetTaxId.html → ...uts/partials/species_bundle/GetTaxId.html
diff --git a/...artials/species_bundle/LineageConfig.html → ...artials/species_bundle/LineageConfig.html b/...artials/species_bundle/LineageConfig.html → ...artials/species_bundle/LineageConfig.html
diff --git a/...artials/species_bundle/TaxonomyRanks.html → ...artials/species_bundle/TaxonomyRanks.html b/...artials/species_bundle/TaxonomyRanks.html → ...artials/species_bundle/TaxonomyRanks.html
diff --git a/.../species_bundle/assembly_description.html → .../species_bundle/assembly_description.html b/.../species_bundle/assembly_description.html → .../species_bundle/assembly_description.html
diff --git a/...rtials/species_bundle/assembly_stats.html → ...rtials/species_bundle/assembly_stats.html b/...rtials/species_bundle/assembly_stats.html → ...rtials/species_bundle/assembly_stats.html
diff --git a/...rtials/species_bundle/download_table.html → ...rtials/species_bundle/download_table.html b/...rtials/species_bundle/download_table.html → ...rtials/species_bundle/download_table.html
diff --git a/...tials/species_bundle/get-remote-data.html → ...tials/species_bundle/get-remote-data.html b/...tials/species_bundle/get-remote-data.html → ...tials/species_bundle/get-remote-data.html
diff --git a/...outs/partials/species_bundle/lineage.html → ...outs/partials/species_bundle/lineage.html b/...outs/partials/species_bundle/lineage.html → ...outs/partials/species_bundle/lineage.html
diff --git a/hugo/layouts/species_bundle/assembly.html → ...-kit/layouts/species_bundle/assembly.html b/hugo/layouts/species_bundle/assembly.html → ...-kit/layouts/species_bundle/assembly.html
diff --git a/hugo/layouts/species_bundle/download.html → ...-kit/layouts/species_bundle/download.html b/hugo/layouts/species_bundle/download.html → ...-kit/layouts/species_bundle/download.html
diff --git a/hugo/layouts/species_bundle/intro.html → ...tal-kit/layouts/species_bundle/intro.html b/hugo/layouts/species_bundle/intro.html → ...tal-kit/layouts/species_bundle/intro.html